5IR3 Immune System date Mar 11, 2016
title Crystal Structure Of The Recombinant Highest Fibrillogenic N Mutant (Obtained From Patient Ar) Derived From Lambda 6 Lig Variable Domain
authors A.Hernandez-Santoyo, A.Rodriguez-Romero
compound source
Molecule: Ig Lambda Chain V-Vi Region Ar
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: W3110
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Psyn1
symmetry Space Group: I 41 2 2
R_factor 0.174 R_Free 0.207
length a length b length c angle alpha angle beta angle gamma
71.121 71.121 96.453 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
Primary referenceStabilizing an amyloidogenic lambda6 light chain variable domain., Luna-Martinez OD, Hernandez-Santoyo A, Villalba-Velazquez MI, Sanchez-Alcala R, Fernandez-Velasco DA, Becerril B, FEBS J. 2017 Sep 12. doi: 10.1111/febs.14265. PMID:28898537
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (26 Kb) [Save to disk]
  • Biological Unit Coordinates (5ir3.pdb1.gz) 22 Kb
  • CSU: Contacts of Structural Units for 5IR3
  • Structure Factors (269 Kb)
  • Retrieve 5IR3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IR3 from S2C, [Save to disk]
  • Re-refined 5ir3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5IR3 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 5IR3
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5ir3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ir3_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5IR3
  • Community annotation for 5IR3 at PDBWiki (http://pdbwiki.org)

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